I0440

FASTA

Metadata

Reference

Data

identifier I0440
alternative_identifiers ['SVP53']
country Russia
continent Europe
region Pontic steppe
culture Poltavka
epoch Bronze Age
group BARu
comment -
latitude 53.380001068115234
longitude 50.38999938964844
sex M
site Lopatino, Sok River, Samara
site_detail Site II
mt_hg I3a
ychr_hg R1b1a1a2a2
year_from -2887
year_to -2666
date_detail 2887-2666 calBCE (4180±30 BP, Beta-392492)
bp 4180±30
c14_lab_code Beta-392492
c14_sample_tag True
c14_layer_tag -
avg_coverage -
sequence_source bam
reference Mathieson et al. 2015. Genome-wide patterns of selection in 230 ancient Eurasians. Nature, 528(7583), 499-503. (link)
data_link https://www.ebi.ac.uk/ena/data/view/PRJEB11450
ychr_snps ['R:CTS3622:15078469C->G', 'R:F459:18017528G->T', 'R1:L875:16742224A->G', 'R1:P245:8633545T->C', 'R1:P286:17716251C->T', 'R:CTS2426:14300457G->A', 'R:CTS8311:17930099C->A', 'R:F82:7548900G->A', 'R:M651:9889199G->A', 'R:M718:17334694G->T', 'R:P280:21843090C->G', 'R:P285:19267344C->A', 'R1b1a1a2:L150.1:10008791C->T', 'R1b1a:CTS4244:15510064T->G', 'R1:P234:21117888T->C', 'R:L747:16615413G->T', 'R:P224:17285993C->T', 'R1b1a:FGC36:13822833G->T', 'R1b1a:L754:22889018G->A', 'R1b1a:L761:16773870A->G', 'R1:CTS3321:14829196C->T', 'R1:CTS997:7132713G->A', 'R1:CTS8116:17839981G->A', 'R1:F93:7671535C->T', 'R1:M306:22750583C->A', 'R1:P231:9989615A->G', 'R1:P236:17782178C->G', 'R1:P238:7771131G->A', 'R1:P242:7647357G->A', 'R1:P294:7570822G->C', 'R:CTS5815:16491135C->T', 'R:CTS6417:16882568T->C', 'R:CTS7880:17723850C->T', 'R:F33:6701239G->A', 'R:F63:7177189G->A', 'R:F295:15594523A->G', 'R:F356:16629782T->C', 'R:F652:23631629C->A', 'R:FGC1168:15667208G->C', 'R:L1225:22733758C->G', 'R:M207:15581983A->G', 'R:M734:18066156C->T', 'R:M760:21219443A->G', 'R:P227:21409706G->C', 'R:CTS2913:14561760A->G', 'R:F370:16856357T->C', 'R:F765:24360964G->A', 'R1b1a1a:CTS5082:16005138A->C', 'R1b1a1a:CTS7904:17732408T->C', 'R1b1a1a:L502:19020340G->C', 'R1b1a:CTS8612:18109555C->A', 'R1b1a:L1068:21528257T->C', 'R1b1a:PF6271:23984056G->A', 'R1b1:L278:18914441C->T', 'R1b:M343:2887824C->A', 'R1:P225:15590342G->T', 'R:F154:8558505T->C', 'R:P229:8050994G->C', 'R1b1a1a:CTS5577:16376495A->C', 'R1b1a1a:CTS9018:18617596C->T', 'R1b1a1a:PF6418:6766034C->T', 'R:CTS3229:14750668A->C', 'R:CTS11075:22934109A->G', 'R1b1a1a2:CTS623:6912992T->G', 'R1b1a1a2:CTS8591:18095336A->C', 'R1b1a1a2:CTS11468:23124367G->T', 'R1b1a1a2:CTS12478:28590278G->A', 'R1b1a1a2:L265:8149348A->G', 'R1b1a1a2:PF6475:17986687C->A', 'R1b1a1a2:PF6482:18381735A->G', 'R1b1a1a2:PF6495:20828795G->A', 'R1b1a1a2:PF6505:21784286G->A', 'R1b1a1a2:PF6509:22190371A->G', 'R1b1a1a:CTS11985:23403749G->A', 'R1b1a1a:FGC57:7759944G->A', 'R1b1a1a:PF6463:16183412C->A', 'R1b1a:A702:10038192G->A', 'R1b1a:PF6263:21159055C->A', 'R1b1:CTS2134:14193384G->A', 'R1b1:L780:21183643A->G', 'R1b1:L822:7960019G->A', 'R1b1:M415:9170545C->A', 'R1b1a1a2a2:Z2105:15747432C->A', 'R1b1a1a2:PF6494:20811307G->A', 'R1b1a1a2a2:CTS1078:7186135G->C', 'R1b1a1a2a2:M12149:14629851G->A', 'R1b1a1a2a:L23:6753511G->A', 'R1b1a1a2a:L49.1:2842212T->A', 'R1b1a1a2:CTS2664:14416216G->A', 'R1b1a1a2:CTS3575:15037433C->G', 'R1b1a1a2:CTS8728:18167403C->T', 'R1b1a1a2:CTS10834:22796697T->C', 'R1b1a1a2:L482:7863189G->A', 'R1b1a1a2:L1353:19179540G->A', 'R1b1a1a2:M269:22739367T->C', 'R1b1a1a2:PF6399:2668456C->T', 'R1b1a1a2:PF6409:4352151G->A', 'R1b1a1a2:PF6425:7762947T->C', 'R1b1a1a2:PF6430:8070532T->A', 'R1b1a1a2:PF6434:8411202A->G', 'R1b1a1a2:PF6438:9464078C->T', 'R1b1a1a2:PF6497:21222868C->G', 'R1b1a1a2:PF6500:21410840G->T', 'R1b1a1a:P297:18656508G->C', 'R1b1a1a:PF6451:14116584T->A', 'R1b1a1a:PF6498:21312064C->A', 'R1b1a1a:PF6501:21447844A->T', 'R1b1a1a:PF6524:23452965T->C', 'R1b1a:CTS3063:14637352T->C', 'R1b1a:CTS8436:18026855G->A', 'R1b1a:CTS9972:19179606A->C', 'R1b1a:FGC41:7900883C->A', 'R1b1a:L1345:21558298G->T', 'R1b1:CTS46:2686555G->A', 'R1b1:CTS910:7081561C->T', 'R1:F102:7854412A->G']
mitopathos [{'allele': '10398G', 'position': 10398, 'status': 'Reported / lineage L & M marker / also hg IJK', 'homoplasmy': '+', 'heteroplasmy': '-', 'locus': ['MT-ND3'], 'diseases': ['PD protective factor / longevity / altered cell pH / metabolic syndrome / breast cancer risk / Leigh Syndrome risk / ADHD / cognitive decline / SCA2 age of onset / Fuchs endothelial corneal dystrophy']}, {'allele': '12705T', 'position': 12705, 'status': 'Reported', 'homoplasmy': '<NA>', 'heteroplasmy': '<NA>', 'locus': ['MT-CO1'], 'diseases': ['Possible protective factor for normal tension glaucoma']}, {'allele': '15043A', 'position': 15043, 'status': 'Reported', 'homoplasmy': '+', 'heteroplasmy': '-', 'locus': ['MT-CYB'], 'diseases': ['MDD-associated']}, {'allele': '15924G', 'position': 15924, 'status': 'Reported', 'homoplasmy': 'nr', 'heteroplasmy': 'nr', 'locus': ['MT-TT'], 'diseases': ['LIMM']}, {'allele': '16129A', 'position': 16129, 'status': 'Reported', 'homoplasmy': '-', 'heteroplasmy': '+', 'locus': ['MT-CR'], 'diseases': ['Cyclic Vomiting Syndrome with Migraine']}, {'allele': '310C', 'position': 310, 'status': 'Reported', 'homoplasmy': '<NA>', 'heteroplasmy': '<NA>', 'locus': ['MT-CR'], 'diseases': ['Possible protective factor for normal tension glaucoma']}]